Marc Robinson-Rechavi

Publication Activity (10 Years)

Years Active: 1999-2023
Publications (10 Years): 17

Top Topics

Biological Databases

Quality Control

Approximate Matches

Top Venues

Database J. Biol. Databases Curation

PLoS Comput. Biol.

Publications

Tarcisio Mendes de Farias, Julien Wollbrett, Marc Robinson-Rechavi, Frederic B. Bastian
Boosting interoperability: towards an increasingly reusable bioinformatics knowledge base. CoRR (2023)
David Laloum, Marc Robinson-Rechavi
Rhythmicity is linked to expression cost at the protein level but to expression precision at the mRNA level. PLoS Comput. Biol. 18 (9) (2022)
Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger
Bio-SODA UX: enabling natural language question answering over knowledge graphs with user disambiguation. Distributed Parallel Databases 40 (2) (2022)
Victor Rossier, Alex Warwick Vesztrocy, Marc Robinson-Rechavi, Christophe Dessimoz
OMAmer: tree-driven and alignment-free protein assignment to subfamilies outperforms closest sequence approaches. Bioinform. 37 (18) (2021)
Frederic B. Bastian, Julien Roux, Anne Niknejad, Aurélie Comte, Sara S. Fonseca Costa, Tarcisio Mendes de Farias, Sébastien Moretti, Gilles Parmentier, Valentine Rech de Laval, Marta Rosikiewicz, Julien Wollbrett, Amina Echchiki, Angélique Escoriza, Walid H. Gharib, Mar Gonzales-Porta, Yohan Jarosz, Balazs Laurenczy, Philippe Moret, Emilie Person, Patrick Roelli, Komal Sanjeev, Mathieu Seppey, Marc Robinson-Rechavi
The Bgee suite: integrated curated expression atlas and comparative transcriptomics in animals. Nucleic Acids Res. 49 (Database-Issue) (2021)
Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data. SSDBM (2021)
Ana Claudia Sima, Tarcisio Mendes de Farias, Maria Anisimova, Christophe Dessimoz, Marc Robinson-Rechavi, Erich Zbinden, Kurt Stockinger
Bio-SODA: Enabling Natural Language Question Answering over Knowledge Graphs without Training Data. CoRR (2021)
David Laloum, Marc Robinson-Rechavi
Methods detecting rhythmic gene expression are biologically relevant only for strong signal. PLoS Comput. Biol. 16 (3) (2020)
Qingyu Chen, Ramona Britto, Ivan Erill, Constance J. Jeffery, Arthur Liberzon, Michele Magrane, Jun-ichi Onami, Marc Robinson-Rechavi, Jana Sponarova, Justin Zobel, Karin Verspoor
Quality Matters: Biocuration Experts on the Impact of Duplication and Other Data Quality Issues in Biological Databases. Genom. Proteom. Bioinform. 18 (2) (2020)
Ana Claudia Sima, Tarcisio Mendes de Farias, Erich Zbinden, Maria Anisimova, Manuel Gil, Heinz Stockinger, Kurt Stockinger, Marc Robinson-Rechavi, Christophe Dessimoz
Enabling semantic queries across federated bioinformatics databases. Database J. Biol. Databases Curation 2019 (2019)
Amanda Bell, Raja Mazumder, Daniel J. Crichton, Vijay K. Shanker, Frédéric B. Bastian, Hayley Dingerdissen, Samir Gupta, Evan Holmes, Robel Y. Kahsay, Heather L. Kincaid, A. S. M. Ashique Mahmood, Marc Robinson-Rechavi, Stephanie S. Singleton
OncoMX: an Integrated Cancer Mutation and Expression Knowledgebase for Biomarker Evaluation and Discovery. AMIA (2019)
Andrea Komljenovic, Hao Li, Vincenzo Sorrentino, Zoltán Kutalik, Johan Auwerx, Marc Robinson-Rechavi
Cross-species functional modules link proteostasis to human normal aging. PLoS Comput. Biol. 15 (7) (2019)
Iakov I. Davydov, Marc Robinson-Rechavi, Nicolas Salamin
State aggregation for fast likelihood computations in molecular evolution. Bioinform. 33 (3) (2017)
Nadezda Kryuchkova-Mostacci, Marc Robinson-Rechavi
A benchmark of gene expression tissue-specificity metrics. Briefings Bioinform. 18 (2) (2017)
Andrea Komljenovic, Julien Roux, Marc Robinson-Rechavi, Frederic B. Bastian
BgeeDB, an R package for retrieval of curated expression datasets and for gene list expression localization enrichment tests. F1000Research 5 (2016)
Marta Rosikiewicz, Marc Robinson-Rechavi
IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics. Bioinform. 32 (16) (2016)
Nadezda Kryuchkova-Mostacci, Marc Robinson-Rechavi
Tissue-Specificity of Gene Expression Diverges Slowly between Orthologs, and Rapidly between Paralogs. PLoS Comput. Biol. 12 (12) (2016)
Frederic B. Bastian, Marcus C. Chibucos, Pascale Gaudet, Michelle G. Giglio, Gemma L. Holliday, Hong Huang, Suzanna E. Lewis, Anne Niknejad, Sandra E. Orchard, Sylvain Poux, Nives Skunca, Marc Robinson-Rechavi
The Confidence Information Ontology: a step towards a standard for asserting confidence in annotations. Database J. Biol. Databases Curation 2015 (2015)
Nadezda Kryuchkova, Marc Robinson-Rechavi
Determinants of protein evolutionary rates in light of ENCODE functional genomics. BMC Bioinform. 15 (S-3) (2014)
Mario Valle, Hannes Schabauer, Christoph Pacher, Heinz Stockinger, Alexandros Stamatakis, Marc Robinson-Rechavi, Nicolas Salamin
Optimization strategies for fast detection of positive selection on phylogenetic trees. Bioinform. 30 (8) (2014)
Sébastien Moretti, Balazs Laurenczy, Walid H. Gharib, Briséïs Castella, Arnold Kuzniar, Hannes Schabauer, Romain A. Studer, Mario Valle, Nicolas Salamin, Heinz Stockinger, Marc Robinson-Rechavi
Selectome update: quality control and computational improvements to a database of positive selection. Nucleic Acids Res. 42 (Database-Issue) (2014)
Marta Rosikiewicz, Marc Robinson-Rechavi
IQRray, a new method for Affymetrix microarray quality control, and the homologous organ conservation score, a new benchmark method for quality control metrics. Bioinform. 30 (10) (2014)
Erik L. L. Sonnhammer, Toni Gabaldón, Alan W. Sousa da Silva, Maria Jesus Martin, Marc Robinson-Rechavi, Brigitte Boeckmann, Paul D. Thomas, Christophe Dessimoz, The Quest for Orthologs Consortium
Big data and other challenges in the quest for orthologs. Bioinform. 30 (21) (2014)
Melissa A. Haendel, James P. Balhoff, Frederic B. Bastian, David C. Blackburn, Judith A. Blake, Yvonne M. Bradford, Aurélie Comte, Wasila M. Dahdul, Thomas Dececchi, Robert E. Druzinsky, Terry F. Hayamizu, Nizar Ibrahim, Suzanna E. Lewis, Paula M. Mabee, Anne Niknejad, Marc Robinson-Rechavi, Paul C. Sereno, Christopher J. Mungall
Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon. J. Biomed. Semant. 5 (2014)
Pascale Gaudet, Monica C. Munoz-Torres, Marc Robinson-Rechavi, Teresa K. Attwood, Alex Bateman, J. Michael Cherry, Renate Kania, Claire O'Donovan, Chisato Yamasaki
, is now the official journal of the International Society for Biocuration. Database J. Biol. Databases Curation 2013 (2013)
Marta Rosikiewicz, Aurélie Comte, Anne Niknejad, Marc Robinson-Rechavi, Frederic B. Bastian
Uncovering hidden duplicated content in public transcriptomics data. Database J. Biol. Databases Curation 2013 (2013)
Anne Niknejad, Aurélie Comte, Gilles Parmentier, Julien Roux, Frederic B. Bastian, Marc Robinson-Rechavi
vHOG, a multispecies vertebrate ontology of homologous organs groups. Bioinform. 28 (7) (2012)
Hannes Schabauer, Mario Valle, Christoph Pacher, Heinz Stockinger, Alexandros Stamatakis, Marc Robinson-Rechavi, Ziheng Yang, Nicolas Salamin
SlimCodeML: An Optimized Version of CodeML for the Branch-Site Model. IPDPS Workshops (2012)
Adrian M. Altenhoff, Romain A. Studer, Marc Robinson-Rechavi, Christophe Dessimoz
Resolving the Ortholog Conjecture: Orthologs Tend to Be Weakly, but Significantly, More Similar in Function than Paralogs. PLoS Comput. Biol. 8 (5) (2012)
Sébastien Moretti, Riccardo Murri, Sergio Maffioletti, Arnold Kuzniar, Briséïs Castella, Nicolas Salamin, Marc Robinson-Rechavi, Heinz Stockinger
gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution. HealthGrid (2012)
Barbara Piasecka, Marc Robinson-Rechavi, Sven Bergmann
Correcting for the bias due to expression specificity improves the estimation of constrained evolution of expression between mouse and human. Bioinform. 28 (14) (2012)
Pascale Gaudet, Cecilia N. Arighi, Frederic B. Bastian, Alex Bateman, Judith A. Blake, J. Michael Cherry, Peter D'Eustachio, Robert D. Finn, Michelle G. Giglio, Lynette Hirschman, Renate Kania, William Klimke, Maria Jesus Martin, Ilene Karsch-Mizrachi, Monica C. Munoz-Torres, Darren A. Natale, Claire O'Donovan, B. F. Francis Ouellette, Kim D. Pruitt, Marc Robinson-Rechavi, Susanna-Assunta Sansone, Paul N. Schofield, Granger G. Sutton, Kimberly Van Auken, Sona Vasudevan, Cathy H. Wu, Jasmine Young, Raja Mazumder
Recent advances in biocuration: Meeting Report from the fifth International Biocuration Conference. Database J. Biol. Databases Curation 2012 (2012)
Sébastien Moretti, Riccardo Murri, Sergio Maffioletti, Arnold Kuzniar, Briséïs Castella, Nicolas Salamin, Marc Robinson-Rechavi, Heinz Stockinger
gcodeml: A Grid-enabled Tool for Detecting Positive Selection in Biological Evolution CoRR (2012)
Brigitte Boeckmann, Marc Robinson-Rechavi, Ioannis Xenarios, Christophe Dessimoz
Conceptual framework and pilot study to benchmark phylogenomic databases based on reference gene trees. Briefings Bioinform. 12 (5) (2011)
Walid H. Gharib, Marc Robinson-Rechavi
When orthologs diverge between human and mouse. Briefings Bioinform. 12 (5) (2011)
Vidhya Jagannathan, Marc Robinson-Rechavi
Meta-analysis of estrogen response in MCF-7 distinguishes early target genes involved in signaling and cell proliferation from later target genes involved in cell cycle and DNA repair. BMC Syst. Biol. 5 (2011)
Gilles Parmentier, Frederic B. Bastian, Marc Robinson-Rechavi
Homolonto: generating homology relationships by pairwise alignment of ontologies and application to vertebrate anatomy. Bioinform. 26 (14) (2010)
Adam Kraut, Sébastien Moretti, Marc Robinson-Rechavi, Heinz Stockinger, Dean Flanders
Phylogenetic Code in the Cloud - Can it Meet the Expectations? HealthGrid (2010)
Estelle Proux-Wéra, Romain A. Studer, Sébastien Moretti, Marc Robinson-Rechavi
Selectome: a database of positive selection. Nucleic Acids Res. 37 (Database-Issue) (2009)
Frederic B. Bastian, Gilles Parmentier, Julien Roux, Sébastien Moretti, Vincent Laudet, Marc Robinson-Rechavi
Bgee: Integrating and Comparing Heterogeneous Transcriptome Data Among Species. DILS (2008)
Grigoris D. Amoutzias, Elgar Pichler, Nina Mian, David De Graaf, Anastasia Imsiridou, Marc Robinson-Rechavi, Erich Bornberg-Bauer, David L. Robertson, Stephen G. Oliver
A protein interaction atlas for the nuclear receptors: properties and quality of a hub-based dimerisation network. BMC Syst. Biol. 1 (2007)
David Ruau, Jorge Duarte, Tarik Ourjdal, Guy Perrière, Vincent Laudet, Marc Robinson-Rechavi
Update of NUREBASE: nuclear hormone receptor functional genomics. Nucleic Acids Res. 32 (Database-Issue) (2004)
Jorge Duarte, Guy Perrière, Vincent Laudet, Marc Robinson-Rechavi
NUREBASE: database of nuclear hormone receptors. Nucleic Acids Res. 30 (1) (2002)
Marc Robinson-Rechavi, Dorothée Huchon
RRTree: Relative-Rate Tests between groups of sequences on a phylogenetic tree. Bioinform. 16 (3) (2000)
Isabelle Gonçalves, Marc Robinson-Rechavi, Guy Perrière, Dominique Mouchiroud
JaDis: computing distances between nucleic acid sequences. Bioinform. 15 (5) (1999)